RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 029926
(185 letters)
>1o4v_A Phosphoribosylaminoimidazole mutase PURE; structural genomics,
joint center for structural genomics, J protein
structure initiative, PSI; 1.77A {Thermotoga maritima}
SCOP: c.23.8.1
Length = 183
Score = 106 bits (266), Expect = 1e-29
Identities = 40/82 (48%), Positives = 50/82 (60%)
Query: 102 EENANGDSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYAL 161
+ + P VGIIM SDSDLPVM AA L +FG+ YEI I+S H+ YA
Sbjct: 3 SDKIHHHHHHVPRVGIIMGSDSDLPVMKQAAEILEEFGIDYEITIVSAHRTPDRMFEYAK 62
Query: 162 SAKERGIKIIIVGDGVEAHLSG 183
+A+ERGI++II G G AHL G
Sbjct: 63 NAEERGIEVIIAGAGGAAHLPG 84
>3lp6_A Phosphoribosylaminoimidazole carboxylase catalyti; alpha and beta
protein, structural genomics, PSI-2, protein initiative;
1.70A {Mycobacterium tuberculosis}
Length = 174
Score = 103 bits (258), Expect = 2e-28
Identities = 35/76 (46%), Positives = 50/76 (65%)
Query: 108 DSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERG 167
+ + P VG+IM SDSD PVM DAA L++F +P E++++S H+ + SYA A RG
Sbjct: 3 PAGERPRVGVIMGSDSDWPVMADAAAALAEFDIPAEVRVVSAHRTPEAMFSYARGAAARG 62
Query: 168 IKIIIVGDGVEAHLSG 183
+++II G G AHL G
Sbjct: 63 LEVIIAGAGGAAHLPG 78
>3trh_A Phosphoribosylaminoimidazole carboxylase carboxyltransferase
subunit; purines, pyrimidines, nucleosides, nucleotides,
lyase; 2.20A {Coxiella burnetii}
Length = 169
Score = 98.5 bits (246), Expect = 1e-26
Identities = 28/75 (37%), Positives = 40/75 (53%)
Query: 109 STDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGI 168
+ + V I+M SDSDL M A L G+P+E ILS H+ K + + +A RG
Sbjct: 3 AMNKIFVAILMGSDSDLSTMETAFTELKSLGIPFEAHILSAHRTPKETVEFVENADNRGC 62
Query: 169 KIIIVGDGVEAHLSG 183
+ I G+ AHL+G
Sbjct: 63 AVFIAAAGLAAHLAG 77
>3rg8_A Phosphoribosylaminoimidazole carboxylase, PURE PR; purine
biosynthesis, lyase; 1.74A {Treponema denticola} PDB:
3rgg_A*
Length = 159
Score = 98.1 bits (245), Expect = 2e-26
Identities = 23/73 (31%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 112 TPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKER-GIKI 170
P+V I+M S SD+ A L FG+ Y I+I S H+ + +S + K+
Sbjct: 2 RPLVIILMGSSSDMGHAEKIASELKTFGIEYAIRIGSAHKTAEHVVSMLKEYEALDRPKL 61
Query: 171 IIVGDGVEAHLSG 183
I G LSG
Sbjct: 62 YITIAGRSNALSG 74
>4b4k_A N5-carboxyaminoimidazole ribonucleotide mutase; isomerase; 2.50A
{Bacillus anthracis}
Length = 181
Score = 97.4 bits (243), Expect = 4e-26
Identities = 32/82 (39%), Positives = 43/82 (52%)
Query: 102 EENANGDSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYAL 161
S +VG+IM S SD M A L + +PYE K++S H+ YA
Sbjct: 12 SGLVPRGSHMKSLVGVIMGSTSDWETMKYACDILDELNIPYEKKVVSAHRTPDYMFEYAE 71
Query: 162 SAKERGIKIIIVGDGVEAHLSG 183
+A+ERG+K+II G G AHL G
Sbjct: 72 TARERGLKVIIAGAGGAAHLPG 93
>3ors_A N5-carboxyaminoimidazole ribonucleotide mutase; isomerase,
isomerase,biosynthetic protein; 1.45A {Staphylococcus
aureus subsp}
Length = 163
Score = 96.9 bits (242), Expect = 4e-26
Identities = 30/74 (40%), Positives = 44/74 (59%)
Query: 110 TDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIK 169
++ V +IM S SD +M ++ L F +PYE +++S H+ K + +A A+ERGI
Sbjct: 1 SNAMKVAVIMGSSSDWKIMQESCNMLDYFEIPYEKQVVSAHRTPKMMVQFASEARERGIN 60
Query: 170 IIIVGDGVEAHLSG 183
III G G AHL G
Sbjct: 61 IIIAGAGGAAHLPG 74
>1xmp_A PURE, phosphoribosylaminoimidazole carboxylase; purine
biosynthesis, spine, lyase; 1.80A {Bacillus anthracis}
SCOP: c.23.8.1
Length = 170
Score = 96.9 bits (242), Expect = 4e-26
Identities = 31/80 (38%), Positives = 44/80 (55%)
Query: 104 NANGDSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSA 163
+ + +VG+IM S SD M A L + +PYE K++S H+ YA +A
Sbjct: 3 SHHHHHHMKSLVGVIMGSTSDWETMKYACDILDELNIPYEKKVVSAHRTPDYMFEYAETA 62
Query: 164 KERGIKIIIVGDGVEAHLSG 183
+ERG+K+II G G AHL G
Sbjct: 63 RERGLKVIIAGAGGAAHLPG 82
>3kuu_A Phosphoribosylaminoimidazole carboxylase catalyti PURE; 3-layer
(ABA) sandwich, rossmann fold, csgid, lyase, structu
genomics; 1.41A {Yersinia pestis} PDB: 1d7a_A* 1qcz_A
2ate_A* 2nsl_A* 2nsh_A* 2nsj_A*
Length = 174
Score = 95.1 bits (237), Expect = 3e-25
Identities = 27/80 (33%), Positives = 41/80 (51%)
Query: 104 NANGDSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSA 163
N N + I+M S SD M AA L+ VP+ ++++S H+ S+A A
Sbjct: 4 NLNSAYAAGVKIAIVMGSKSDWATMQFAADVLTTLNVPFHVEVVSAHRTPDRLFSFAEQA 63
Query: 164 KERGIKIIIVGDGVEAHLSG 183
+ G+ +II G+G AHL G
Sbjct: 64 EANGLHVIIAGNGGAAHLPG 83
>3oow_A Phosphoribosylaminoimidazole carboxylase,catalyic; structural
genomics, center for structural genomics of infec
diseases, csgid; HET: MSE; 1.75A {Francisella tularensis
subsp} PDB: 3opq_A*
Length = 166
Score = 94.6 bits (236), Expect = 3e-25
Identities = 30/75 (40%), Positives = 43/75 (57%)
Query: 109 STDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGI 168
+ + VG+IM S SD M + L + G+ YE +++S H+ YA +AKERG+
Sbjct: 2 NAMSVQVGVIMGSKSDWSTMKECCDILDNLGIGYECEVVSAHRTPDKMFDYAETAKERGL 61
Query: 169 KIIIVGDGVEAHLSG 183
K+II G G AHL G
Sbjct: 62 KVIIAGAGGAAHLPG 76
>1u11_A PURE (N5-carboxyaminoimidazole ribonucleotide MUT; acidophIle,
protein stability, lyase; HET: CIT; 1.55A {Acetobacter
aceti} SCOP: c.23.8.1 PDB: 2fwj_A* 2fw1_A* 2fwb_A 2fwa_A
2fw9_A 2fw7_A 2fw6_A 2fwp_A* 2fwi_A* 2fw8_A
Length = 182
Score = 95.1 bits (237), Expect = 3e-25
Identities = 31/82 (37%), Positives = 42/82 (51%)
Query: 102 EENANGDSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYAL 161
+ P+VGIIM S SD M A L++ +P+E I+S H+ YA
Sbjct: 11 SSALEDKAASAPVVGIIMGSQSDWETMRHADALLTELEIPHETLIVSAHRTPDRLADYAR 70
Query: 162 SAKERGIKIIIVGDGVEAHLSG 183
+A ERG+ +II G G AHL G
Sbjct: 71 TAAERGLNVIIAGAGGAAHLPG 92
>2ywx_A Phosphoribosylaminoimidazole carboxylase catalyti; rossmann fold,
structural genomics, NPPSFA; 2.31A {Methanocaldococcus
jannaschii}
Length = 157
Score = 85.7 bits (213), Expect = 8e-22
Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 114 IVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIIIV 173
++ IIM S+SDL + A L +FGV +E+++ S H+ + ++K + I
Sbjct: 1 MICIIMGSESDLKIAEKAVNILKEFGVEFEVRVASAHRTPELVEEIVKNSKA---DVFIA 57
Query: 174 GDGVEAHLSG 183
G+ AHL G
Sbjct: 58 IAGLAAHLPG 67
>2h31_A Multifunctional protein ADE2; alpha-beta-alpha, ligase, lyase;
2.80A {Homo sapiens}
Length = 425
Score = 69.9 bits (171), Expect = 1e-14
Identities = 20/89 (22%), Positives = 33/89 (37%), Gaps = 1/89 (1%)
Query: 98 TVFEEENANGDSTDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGAL 157
V E S V ++M S SDL + +FG+P E+++ S H+ L
Sbjct: 251 WVAERVELLLKSESQCRVVVLMGSTSDLGHCEKIKKACGNFGIPCELRVTSAHKGPDETL 310
Query: 158 SYALSAKERGI-KIIIVGDGVEAHLSGTL 185
+ GI + + G L +
Sbjct: 311 RIKAEYEGDGIPTVFVAVAGRSNGLGPVM 339
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 43.1 bits (101), Expect = 2e-05
Identities = 38/181 (20%), Positives = 58/181 (32%), Gaps = 58/181 (32%)
Query: 6 PGKVDLGSARRCFTMRTSVLRMQFCEFKFFVT----SCLIEPRQKKFVEGKVRMLNNSRR 61
P +D +R F+ R +F V S L+ P + + +
Sbjct: 399 PSGLD--QSRIPFSERKLKFSNRFLP----VASPFHSHLLVPASDLINK-------DLVK 445
Query: 62 SNSVRTVSQGTIPVLASSNGSATSTRKDYSSVREPSTVFEEENANGDSTDTPIVGIIMES 121
+N IPV + +GS D +R S S IV I+
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGS------D---LRVLS----------GSISERIVDCIIR- 485
Query: 122 DSDLPV-----MNDAARTLSDFGVPYEIKILSP--HQNRKGALSYALSAKERGIKIIIVG 174
LPV A + DFG P L H+N+ G G+++I+ G
Sbjct: 486 ---LPVKWETTTQFKATHILDFG-PGGASGLGVLTHRNKDG----------TGVRVIVAG 531
Query: 175 D 175
Sbjct: 532 T 532
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 31.7 bits (71), Expect = 0.12
Identities = 22/129 (17%), Positives = 43/129 (33%), Gaps = 44/129 (34%)
Query: 21 RTSVLRMQFCEFKFFVTSCLIEPRQKKFVEGKVRMLNNSRRSNSVRTVSQGTIPVLASSN 80
R ++ RM F +F+F +E K+ R ++ S + L
Sbjct: 489 RMTLFRMVFLDFRF--------------LEQKI------RHDSTAWNASGSILNTLQQLK 528
Query: 81 GSATSTRKDYSSVREPSTVFE-------------EENA-NGDSTDTPIVGIIMESDSDLP 126
K Y +P +E EEN TD ++ I + ++ +
Sbjct: 529 -----FYKPYICDNDP--KYERLVNAILDFLPKIEENLICSKYTD--LLRIALMAEDE-A 578
Query: 127 VMNDAARTL 135
+ +A + +
Sbjct: 579 IFEEAHKQV 587
>1eu1_A Dimethyl sulfoxide reductase; molybdenum, molybdenum cofactor,
DMSO, molybdopte oxidoreductase; HET: GLC MGD EPE; 1.30A
{Rhodobacter sphaeroides} SCOP: b.52.2.2 c.81.1.1 PDB:
4dmr_A* 1dmr_A* 1e5v_A* 1h5n_A* 2dmr_A* 3dmr_A* 1e61_A*
1e60_A* 1e18_A* 1dms_A*
Length = 780
Score = 29.3 bits (66), Expect = 0.78
Identities = 19/111 (17%), Positives = 37/111 (33%), Gaps = 21/111 (18%)
Query: 69 SQGTIPVLASSNGSATSTRKDYSS----VREPSTVFEEENANGDSTDTPIVGIIMESDSD 124
Q + + G ++ DYS+ + P + E + +V ++D
Sbjct: 125 CQVLMRRALNLAGGFVNSSGDYSTAAAQIIMPHVMGTLEVYEQQTAWPVVV-----ENTD 179
Query: 125 LPVM--NDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIIIV 173
L V D +T V + H + KE+G ++I +
Sbjct: 180 LMVFWAADPMKTNEIGWV------IPDHGAYA----GMKALKEKGTRVIAI 220
>2uzz_A N-methyl-L-tryptophan oxidase; N-methyltryptophan oxidase (MTOX),
oxidative demethylation of N-methyl-L-tryptophan, FAD,
flavoenzyme; HET: FAD; 3.2A {Escherichia coli}
Length = 372
Score = 28.1 bits (63), Expect = 2.0
Identities = 15/91 (16%), Positives = 26/91 (28%), Gaps = 11/91 (12%)
Query: 70 QGTIPV-LASSNGSATSTRKDYSS-------VREPSTVFEE-ENANGDSTDTPIVGIIME 120
P S +G R Y V +++E N D G+I
Sbjct: 33 AHMPPHQHGSHHGDTRLIRHAYGEGEKYVPLVLRAQMLWDELSRHNEDDPIFVRSGVINL 92
Query: 121 SDSDLPVMNDAARTLSDFGVPYEIKILSPHQ 151
+D + + A + + + E L
Sbjct: 93 GPADSTFLANVAHSAEQWQLNVE--KLDAQG 121
>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics,
structural genomics consortium,; HET: GDP; 1.73A {Homo
sapiens}
Length = 201
Score = 27.4 bits (61), Expect = 2.4
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 148 SPHQNRKGALSYALSAKERGIKIIIVGDG 176
S G A A+ RG+K ++VGDG
Sbjct: 1 SMGPGEPGGRGRAGGAEGRGVKCVLVGDG 29
>4aee_A Alpha amylase, catalytic region; hydrolase, hyperthermostable,
cyclodextrin hydrolase, GH13; 2.28A {Staphylothermus
marinus}
Length = 696
Score = 27.8 bits (62), Expect = 2.5
Identities = 5/15 (33%), Positives = 7/15 (46%), Gaps = 2/15 (13%)
Query: 163 AKERGIKIIIVGDGV 177
R IKI++ D
Sbjct: 321 LHSRKIKIVL--DIT 333
>2dh2_A 4F2 cell-surface antigen heavy chain; TIM-barrel, glycosidase like,
antiparallel beta-sheet, greek terminal domain,
extracellular domain; 2.10A {Homo sapiens} PDB: 2dh3_A
Length = 424
Score = 27.0 bits (60), Expect = 3.9
Identities = 5/20 (25%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 163 AKERGIKIIIVGDGVEAHLS 182
AK++ I++I+ D +
Sbjct: 91 AKKKSIRVIL--DLTPNYRG 108
>2wc7_A Alpha amylase, catalytic region; CD/PUL-hydrolyzing enzymes,
hydrolase, glycosidase, neopullu; 2.37A {Nostoc
punctiforme} PDB: 2wcs_A 2wkg_A
Length = 488
Score = 26.9 bits (60), Expect = 3.9
Identities = 7/15 (46%), Positives = 11/15 (73%), Gaps = 2/15 (13%)
Query: 163 AKERGIKIIIVGDGV 177
A +R IK+++ DGV
Sbjct: 112 AHQRNIKVVL--DGV 124
>3o1l_A Formyltetrahydrofolate deformylase; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: MSE; 2.20A {Pseudomonas syringae PV}
Length = 302
Score = 26.8 bits (60), Expect = 4.1
Identities = 18/84 (21%), Positives = 31/84 (36%), Gaps = 34/84 (40%)
Query: 114 IVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSP-----HQNR------------KGA 156
+ ++ +D+ V+ AR Y ++IL P + ++ GA
Sbjct: 173 VSRLVGHHQADVVVL---AR--------Y-MQILPPQLCREYAHQVINIHHSFLPSFVGA 220
Query: 157 LSYALSAKERGIKIIIVGDGVEAH 180
Y A RG+K+I G H
Sbjct: 221 KPYH-QASLRGVKLI----GATCH 239
>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.22.1.1 PDB: 1j5a_K* 1jzy_K* 1jzz_K*
1k01_K* 1nkw_C 1sm1_C* 2zjp_C* 2zjq_C 1jzx_K 3cf5_C*
3dll_C* 3pio_C* 3pip_C* 1nwy_C* 1nwx_C* 1xbp_C* 1pnu_C
1pny_C 1vor_F 1vou_F ...
Length = 205
Score = 26.4 bits (59), Expect = 4.6
Identities = 9/34 (26%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 142 YEIKILSPHQNRKGALSYALSAKERGIKIIIVGD 175
Y+ + P Q R+ L+ A+++++ G K++ V
Sbjct: 91 YDYTL--PRQVRQLGLAMAIASRQEGGKLVAVDG 122
>2z1k_A (NEO)pullulanase; hydrolase, structural genomics, NPPSFA, national
project on structural and functional analyses; HET: GLC;
2.30A {Thermus thermophilus}
Length = 475
Score = 26.9 bits (60), Expect = 4.9
Identities = 6/15 (40%), Positives = 10/15 (66%), Gaps = 2/15 (13%)
Query: 163 AKERGIKIIIVGDGV 177
A G+++I+ DGV
Sbjct: 106 AHAHGVRVIL--DGV 118
>3r8s_E 50S ribosomal protein L4; protein biosynthesis, RNA, tRNA, transfer
RNA, 23S ribosomal subunit, ribosome recycling factor,
RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_C
1p86_C 1vs8_E 1vs6_E 2aw4_E 2awb_E 1vt2_E 2i2v_E 2j28_E
2i2t_E* 2qao_E* 2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E*
2qbk_E* 2qov_E 2qox_E 2qoz_E* ...
Length = 201
Score = 26.4 bits (59), Expect = 5.1
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 142 YEIKILSPHQNRKGALSYALSAKERGIKIIIVGD 175
+ K+ + +GAL LS R ++I+V
Sbjct: 92 HSQKV--NKKMYRGALKSILSELVRQDRLIVVEK 123
>3v2d_F 50S ribosomal protein L4; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F
2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F
2wro_F 2wrr_F 2x9s_F 2x9u_F ...
Length = 210
Score = 26.1 bits (58), Expect = 5.6
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 142 YEIKILSPHQNRKGALSYALSAKERGIKIIIVGD 175
Y + P + RK L+ A++ + R K+++V
Sbjct: 97 YSYTL--PKKVRKKGLAMAVADRAREGKLLLVEA 128
>3obi_A Formyltetrahydrofolate deformylase; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: MSE; 1.95A {Rhodopseudomonas palustris}
Length = 288
Score = 26.4 bits (59), Expect = 5.7
Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 34/84 (40%)
Query: 114 IVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSP-----HQNR------------KGA 156
I +I ++ +DL V+ AR Y ++ILS R KGA
Sbjct: 158 ITALIAQTHTDLVVL---AR--------Y-MQILSDEMSARLAGRCINIHHSFLPGFKGA 205
Query: 157 LSYALSAKERGIKIIIVGDGVEAH 180
Y A +RG+K+I G AH
Sbjct: 206 KPYH-QAFDRGVKLI----GATAH 224
>1ea9_C Cyclomaltodextrinase; hydrolase, glycosidase; 3.2A {Bacillus SP}
SCOP: b.1.18.2 b.71.1.1 c.1.8.1
Length = 583
Score = 26.6 bits (59), Expect = 5.7
Identities = 7/20 (35%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 163 AKERGIKIIIVGDGVEAHLS 182
ERGI++++ D V H
Sbjct: 228 CHERGIRVLL--DAVFNHSG 245
>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S
ribosomal protein L3; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus} PDB: 3iy9_D
Length = 175
Score = 26.1 bits (58), Expect = 5.9
Identities = 8/34 (23%), Positives = 13/34 (38%), Gaps = 2/34 (5%)
Query: 142 YEIKILSPHQNRKGALSYALSAKERGIKIIIVGD 175
Y + P + R L AL+ K + I+
Sbjct: 65 YYYML--PMKVRALGLKVALTVKLAQDDLHIMDS 96
>1j0h_A Neopullulanase; beta-alpha-barrels, hydrolase; 1.90A {Geobacillus
stearothermophilus} SCOP: b.1.18.2 b.71.1.1 c.1.8.1 PDB:
1j0i_A* 1j0j_A* 1j0k_A* 1sma_A 1gvi_A*
Length = 588
Score = 26.6 bits (59), Expect = 6.0
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 163 AKERGIKIIIVGDGVEAHLS 182
E+GI++++ D V H
Sbjct: 232 CHEKGIRVML--DAVFNHCG 249
>1dmg_A Ribosomal protein L4; alpha-beta, ribosome, RNA, S10 operon, gene
regulation; HET: CIT; 1.70A {Thermotoga maritima} SCOP:
c.22.1.1
Length = 225
Score = 26.2 bits (58), Expect = 6.1
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 142 YEIKILSPHQNRKGALSYALSAKERGIKIIIVGD 175
+ K+ + +K AL ALS K R K++++ D
Sbjct: 96 WSKKL--NKKMKKLALRSALSVKYRENKLLVLDD 127
>3n0v_A Formyltetrahydrofolate deformylase; formyl transferase, ACT domain,
structural genomics, joint C structural genomics, JCSG;
HET: MSE; 2.25A {Pseudomonas putida}
Length = 286
Score = 26.4 bits (59), Expect = 6.1
Identities = 19/84 (22%), Positives = 34/84 (40%), Gaps = 34/84 (40%)
Query: 114 IVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSP-----HQNR------------KGA 156
++ +I E+ ++L ++ AR Y +++LSP KGA
Sbjct: 158 VLQVIEETGAELVIL---AR--------Y-MQVLSPELCRRLDGWAINIHHSLLPGFKGA 205
Query: 157 LSYALSAKERGIKIIIVGDGVEAH 180
Y A +G+K++ G AH
Sbjct: 206 KPYH-QAYNKGVKMV----GATAH 224
>3lou_A Formyltetrahydrofolate deformylase; structural genomics, JOI for
structural genomics, JCSG, protein structure initiative
hydrolase; HET: MSE; 1.90A {Burkholderia mallei}
Length = 292
Score = 26.4 bits (59), Expect = 6.1
Identities = 22/84 (26%), Positives = 33/84 (39%), Gaps = 34/84 (40%)
Query: 114 IVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSP-----HQNR------------KGA 156
+ + S ++L ++ AR Y +++LSP NR KGA
Sbjct: 163 WLDVFETSGAELVIL---AR--------Y-MQVLSPEASARLANRAINIHHSFLPGFKGA 210
Query: 157 LSYALSAKERGIKIIIVGDGVEAH 180
Y A RG+K+I G AH
Sbjct: 211 KPYH-QAHARGVKLI----GATAH 229
>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super
family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8
PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D*
2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A*
3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...
Length = 186
Score = 25.9 bits (57), Expect = 6.3
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 163 AKERGIKIIIVGDG 176
+ IK ++VGDG
Sbjct: 1 GSPQAIKCVVVGDG 14
>1wzl_A Alpha-amylase II; pullulan, GH-13, alpha-amylase family, hydrolase;
2.00A {Thermoactinomyces vulgaris} SCOP: b.1.18.2
b.71.1.1 c.1.8.1 PDB: 1ji2_A 1bvz_A 1vfk_A* 3a6o_A*
1wzm_A 1jf6_A 1wzk_A 2d2o_A* 1jib_A* 1jl8_A* 1vb9_A*
1g1y_A* 1vfo_A* 1vfm_A* 1vfu_A* 1jf5_A
Length = 585
Score = 26.6 bits (59), Expect = 6.4
Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 163 AKERGIKIIIVGDGVEAHLS 182
A RGIKII+ D V H
Sbjct: 229 AHRRGIKIIL--DAVFNHAG 246
>3nrb_A Formyltetrahydrofolate deformylase; N-terminal ACT domain,
structural genomics, joint center for structural
genomics, JCSG; HET: MSE FLC; 2.05A {Pseudomonas putida}
Length = 287
Score = 26.0 bits (58), Expect = 6.6
Identities = 25/84 (29%), Positives = 33/84 (39%), Gaps = 34/84 (40%)
Query: 114 IVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSP-----HQNR------------KGA 156
I I+ +S +DL V+ AR Y ++ILS R KGA
Sbjct: 157 IKNIVTQSQADLIVL---AR--------Y-MQILSDDLSAFLSGRCINIHHSFLPGFKGA 204
Query: 157 LSYALSAKERGIKIIIVGDGVEAH 180
Y A RG+K+I G AH
Sbjct: 205 KPYH-QAHTRGVKLI----GATAH 223
>2gf3_A MSOX, monomeric sarcosine oxidase; flavoprotein oxidase, inhibitor
2-furoic acid, oxidoreductas; HET: FAD; 1.30A {Bacillus
SP} SCOP: c.3.1.2 d.16.1.3 PDB: 1el7_A* 1el8_A* 1el9_A*
1eli_A* 1l9e_A* 2a89_A* 2gb0_A* 1el5_A* 3qse_A* 3qsm_A*
3qss_A* 3bhk_A* 3bhf_A* 3m12_A* 3m13_A* 3m0o_A* 1l9c_A*
1l9d_A* 1zov_A*
Length = 389
Score = 26.1 bits (58), Expect = 7.4
Identities = 9/85 (10%), Positives = 22/85 (25%), Gaps = 10/85 (11%)
Query: 78 SSNGSATSTRKDYSS-------VREPSTVFEE-ENANGDSTDTPIVGIIMESDSDLPVMN 129
S +G R Y ++ E E T ++ + +
Sbjct: 43 SHHGDTRIIRHAYGEGREYVPLALRSQELWYELEKETHHKIFTKTGVLVFGPKGESAFVA 102
Query: 130 DAARTLSDFGVPYEIKILSPHQNRK 154
+ + + + +L + K
Sbjct: 103 ETMEAAKEHSLTVD--LLEGDEINK 125
>3bbo_G Ribosomal protein L4; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 293
Score = 26.0 bits (57), Expect = 9.3
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 142 YEIKILSPHQNRKGALSYALSAKERGIKIIIVGD 175
+ IK+ + R+ ALS A+++ ++
Sbjct: 148 WTIKM--NKKERRLALSTAIASAVGNSFVVEEFA 179
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.132 0.367
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,624,218
Number of extensions: 145606
Number of successful extensions: 546
Number of sequences better than 10.0: 1
Number of HSP's gapped: 541
Number of HSP's successfully gapped: 42
Length of query: 185
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 97
Effective length of database: 4,244,745
Effective search space: 411740265
Effective search space used: 411740265
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.6 bits)